|
| Status |
Public on Jun 19, 2024 |
| Title |
NCHS-015 Single-cell RNAseq of osteosarcoma patient metastasis. Right upper lobe |
| Sample type |
SRA |
| |
|
| Source name |
lung tumor
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: lung tumor
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Following dissociation into either nuclei or single cell suspension, single-cell 3’ RNA-Seq or 10x multiomics libraries were prepared using Chromium Single Cell system (10x Genomics) according to the manufacturer's instructions
Libraries were constructed per 10x protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
S0218 Human patient lung tumor - 3' single cell RNAseq
|
| Data processing |
BCL files were converted to fastq files using cellranger mkfastq
Fastq files were processed using cellranger count
Further processing and analyses performed are outlined on GitHub (https://github.com/kidcancerlab/epithelial)
Assembly: hg19
Supplementary files format and content: Tar files for each sample include the contents of the filtered_feature_bc_matrix folder output by Cellranger count (barcodes.tsv.gz features.tsv.gz matrix.mtx.gz)
|
| |
|
| Submission date |
Jun 18, 2024 |
| Last update date |
Jun 19, 2024 |
| Contact name |
Matt Cannon |
| E-mail(s) |
matthewvc1@gmail.com
|
| Organization name |
Nationwide Children's Hospital
|
| Department |
Center for Childhood Cancer
|
| Street address |
700 Children's Dr.
|
| City |
Columbus |
| State/province |
OH |
| ZIP/Postal code |
43205 |
| Country |
USA |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
| GSE270231 |
Aberrant activation of wound healing programs within the metastatic niche facilitates lung colonization by osteosarcoma cells |
|
| Relations |
| BioSample |
SAMN41126094 |
| SRA |
SRX24573332 |
